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Marker‐assisted breeding for rust management in wheat

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Abstract

Leaf rust, stripe rust and stem rust are the three important rusts of wheat. While stripe rust is confined to the cooler regions of North West India, stem rust requires a comparatively higher temperature to develop thus confined to Central and peninsular India. Leaf rust on the other hand occurs almost everywhere, wherever wheat is grown in India. Breeding for rust resistance is important for preventing the losses caused by the rust pathogen Puccinia spp. Over the years, judicious deployment of rust resistance genes has kept the rusts under control in India. However, continuous evolution of new virulent races of leaf, stem and stripe rusts have led to breakdown of many effective rust resistance genes. In view of the continuous evolution of new rust races, search and utilization of new rust resistance genes is essential. Resistance breeding using MAS technology have eliminated the creation of artificial rust epiphytotic for selection of rust resistance genes. Marker based selection has aided in incorporation of not only single but multiple genes for rust resistance. Three popular wheat varieties, HD2967, HD2733 and HD2932 were improved for rust resistance by incorporating rust resistance genes, Lr19, Lr24, LrTrK, Sr26, Yr5, Yr10 and Yr15. Apart from seedling resistance genes some APR genes such as Lr34, Lr46, Lr67 and Lr68 were also introgressed in these varieties to impart durable rust resistance. In some varieties such as HD2733 and HD3059 APR and seedling resistance genes were also combined. Several wheat varieties developed through MAS breeding have already replaced the old susceptible wheat varieties. Marker assisted backcross breeding can produce improved versions of the popular varieties or Near isogenic lines in shorter period of time. NILs may also be used effectively to deploy diverse genes in a given geographical area. Multiple NILs of a mega variety carrying different rust resistance genes can help in managing the rust disease by preventing the build up and spread of inoculums.

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References

  • Bansal M, Kaur S, Dhaliwal HS, Bains NS, Bariana HS, Chhuneja P, Bansal UK (2017) Mapping of Aegilops umbellulata-derived leaf rust and stripe rust resistance loci in wheat. Plant Pathol 66:38–44

    Article  CAS  Google Scholar 

  • Bhardwaj SC, Singh GP, Gangwar OP, Prasad P, Kumar S (2019) Status of wheat rust research and progress in rust management-Indian context. Agronomy 9:982. https://doi.org/10.3390/agronomy9120892

    Article  CAS  Google Scholar 

  • Bhawar KB, Vinod,Sharma JB, Singh AK, SivasamyM,Singh M, PrabhuKV, Tomar SMS, SharmaTR,Singh B (2011) Molecular markerassistedpyramidingofleafrustresistancegenesLr19andLr28inbreadwheat(Triticum aestivumL.)varietyHD2687. Indian J Genet 71(4):304–311

    CAS  Google Scholar 

  • Bolton MD, Kolmer JA, Garvin DF (2008) Wheat leaf rust caused by Puccinia triticina. Mol Plant Pathol9(5):563–575

    Article  Google Scholar 

  • Chen S, Rouse MN, Zhang W, Zhang X, Guo Y, Briggs J, Dubcovsky J (2020) Wheat gene Sr60 encodes a protein with two putative kinase domains that confers resistance to stem rust. New Phytol 225(2):948–959

    Article  CAS  PubMed  Google Scholar 

  • Chen X (2013) High-temperature adult-plant resistance, key for sustainable control of stripe rust. Am J Plant Sci 4:608

    Article  Google Scholar 

  • Cherukuri DP, Gupta SK, Charpe A, Koul S, Prabhu KV, Singh RB, Haq QMR (2005) Molecular mapping of Aegilops speltoides derived leaf rust resistance gene Lr28 in wheat. Euphytica 143:19–26. doi:https://doi.org/10.1007/s10681-005-1680-6

    Article  CAS  Google Scholar 

  • Chhuneja P, Vikal Y, Kaur S, Singh R, Juneja S, Bains NS, Berry O, Sharma A, Gupta SK, Charpe A, Prabhu KV, Dhaliwal HS (2011) Marker-assisted pyramiding of leaf rust resistance genes Lr24 and Lr28 in wheat (Triticum aestivum). Indian J Agric Sci 81(3):214–218

    Google Scholar 

  • Forrest K, Pujol V, Bulli P, Pumphrey M, Wellings C, Herrera-Foessel S, Huerta-Espino J, Singh R, Lagudah E, Hayden M, Spielmeyer W (2014) Development of a SNP marker assay for the Lr67 gene of wheat using a genotyping by sequencing approach. Molecular Breeding 34. https://doi.org/10.1007/s11032-014-0166-4

  • Fukuoka S, Saka N, Mizukami Y, Koga H, Yamanouchi U, Yoshioka Y et al (2015) Gene pyramiding enhances durable blast disease resistance in rice. Sci Rep 5:7773. doi:https://doi.org/10.1038/srep07773

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • GireeshC,Vinod, Sharma JB, Prabhu KV (2014) Inheritance and molecular mapping of leaf rust resistance in Triticum turgidumvar. durum cv. Trinakria Indian J Genet 74:10–15. doi:https://doi.org/10.5958/j.0975-6906.74.1.002

    Article  CAS  Google Scholar 

  • Gupta SK, Charpe A, Koul S (2005) Development and validation of molecular markers linked to an Aegilops umbellulata derived leaf rust resistance gene Lr9 for marker-assisted selection in bread wheat. Genome 48: 823–830. https://doi.org/10.1139/g05-051

  • Gupta SK, Charpe A, Prabhu KV, Haque QMR (2006a) Identification and validation of molecular markers linked to the leaf rust resistance gene Lr19 in wheat. Theor Appl Genet 113:1027–1036. doi:https://doi.org/10.1007/s00122-006-0362-7

    Article  CAS  PubMed  Google Scholar 

  • Gupta SK, Charpe A, KoulS,Haque QMR, Prabhu KV (2006b) Development and validation of SCAR markers co-segregating with an Agropyronelongatum derived leaf rust resistance gene Lr24 in wheat. Euphytica 150:233–240. doi:https://doi.org/10.1007/s10681-006-9113-8

    Article  CAS  Google Scholar 

  • Helguera M, Khan IA, Kolmer J, Lijavetzky D, Liu ZQ, Dubcovsky J (2003) PCR assays for the Lr37-Yr17-Sr38 cluster of rust resistance genes and their use to develop isogenic hard red spring wheat lines. Crop Sci 43:1839–1847

    Article  CAS  Google Scholar 

  • Herrera-Foessel SA, Lagudah ES, Huerta-Espino J, Hayden MJ, Bariana HS, Singh D, Singh RP (2011) New slow-rusting leaf rust and stripe rust resistance genes Lr67 and Yr46 in wheat are pleiotropic or closely linked. Theor Appl Genet 122:239–249

    Article  PubMed  Google Scholar 

  • Herrera-FoesselSA, Singh RP, Huerta-EspinoJ,Rosewarne GM, PeriyannanSK,Viccars L, Calvo-Salazar V, Lan C, Lagudah ES (2012) Lr68: a new gene conferring slow rusting resistance to leaf rust in wheat. TheorAppl Genet 124:1475–1486. doi:https://doi.org/10.1007/s00122-012-1802-1

    Article  CAS  Google Scholar 

  • Hiebert C, Thomas J, McCallum B (2005) Locating the broadspectrum wheat leaf rust resistance gene Lr52 (LrW) to chromosome 5B by a new cytogenetic method. Theor Appl Genet 110:1453–1457

    Article  CAS  PubMed  Google Scholar 

  • Hiebert CW, Thomas JB, McCallum BD, Humphreys GD, DePauw RM, Hayden MJ, Mago R, Schnipenkoetter W, Hayden M (2010) An introgression on wheat chromosome 4DL in RL6077 (Thatcher*6/PI 250413) confers adult plant resistance to stripe rust and leaf rust (Lr67). TheorAppl Genet 121:1083–1091

    Article  Google Scholar 

  • Kaur J (2018) Marker assisted pyramiding of resistance genes Yr15 and Lr57-Yr40 in high grain weight versions of PBW 550. M. Sc Thesis. Submitted to PAU, Ludhiana

  • Khan H, Bhardwaj SC, Gangwar OP et al (2017) Identifying some Additional Rust Resistance Genes in Indian Wheat Varieties Using Robust Markers. Cereal Res Commun 45:633–646

    Article  CAS  Google Scholar 

  • Kuraparthy V, Chhuneja P, Dhaliwal HS, Kaur S, Bowden RL, Gill BS (2007) Characterization and mapping of cryptic alien introgression from Aegilops geniculata with new leaf rust and stripe rust resistance genes Lr57 and Yr40 in wheat. Theor Appl Genet 114(8):1379–1389

    Article  CAS  PubMed  Google Scholar 

  • Lagudah ES, Krattinger SG, Herrera-Foessel S, Singh RP, Huerta-Espino J, Spielmeyer W, Brown-Guedira G, Selter LL and KellerB (2009) Gene-specific markers for the wheat gene Lr34/ Yr18/Pm38 which confers resistance to multiple fungal pathogens. Theor Appl Genet 119:889–898

    Article  CAS  PubMed  Google Scholar 

  • Lagudah ES, McFadden H, SinghRP,Huerta-Espino J, BarianaHS,Spielmeyer W (2006) Molecular genetic characterization of the Lr34/Yr18 slow rusting resistance gene region in wheat. Theor Appl Genet 114:21–30. doi:https://doi.org/10.1007/s00122-006-0406-z

  • Lillemo M, Joshi AK, Prasad R, Chand R, Singh RP (2013) QTL for spot blotch resistance in bread wheat line Saar co-locate to the biotrophic disease resistance loci Lr34 and Lr46. Theor. Appl. Genet. 126: 711–719

  • Lillemo M, Singh RP, Huerta-Espino J, Chen XM, He ZH, Brown JKM (2007) Leaf Rust Resistance Gene Lr34 is Involved in Powdery Mildew Resistance of Cimmyt Bread Wheat Line Saar. In: Buck HT, Nisi JE, Salomón N (eds) Wheat Production in Stressed Environments. Developments in Plant Breeding 12. https://doi.org/10.1007/1-4020-5497-1_12

  • Mallick N, Vinod SharmaJB, Tomar RS, SivasamyM, Prabhu KV (2015) Marker-assisted backcross breeding to combine multiple rust resistance in wheat. Plant Breeding 134:172–177. doi:https://doi.org/10.1111/pbr.12242

    Article  CAS  Google Scholar 

  • Marais G, Pretorius Z, Wellings C, McCallum B, Marais A (2005) Leaf rust and stripe rust resistance genes transferred to common wheat from Triticum dicoccoides. Euphytica 143:115–123

    Article  CAS  Google Scholar 

  • McIntosh RA, Dubcovsky J, Rogers WJ, Xia XC, Raupp WJ (2020) Catalogue of Gene Symbols for Wheat – 2020 supplement

  • McNeil MD, Kota R, Paux E, Dunn D, McLean R, Feuillet C, Li D, Kong X, Lagudah E, Zhang JC, Jia JZ (2008) BAC-derived markers for assaying the stem rust resistance gene, Sr2, in wheat breeding programs. Mol breed22(1):15–24

  • Murphy LR, Santra D, Kidwell K, Yan G, Chen X, Campbell KG (2009) Linkage maps of wheat stripe rust resistance genes Yr5 and Yr15 for use in marker-assisted selection. Crop Sci 49:1786–1790. doi:https://doi.org/10.2135/cropsci2008.10.0621

    Article  CAS  Google Scholar 

  • Naik Bhojaraja K, Vinod, Sharma JB, Sivasamy M, Prabhu KV, Tomar RS, Tomar SMS (2015) Molecular mapping and validation of the microsatellite markers linked to the Secale cerealderived leaf rust resistance gene Lr45 in wheat. Mol Breed 35(2):61. https://doi.org/10.1007/s11032-015-0234-4

    Article  CAS  Google Scholar 

  • Niranjana M, Vinod, Sharma JB, Mallick N, Tomar SMS, Jha SK (2017) Cytogenetic analysis and mapping of leaf rust resistance in Aegilops speltoidesTausch derived bread wheat line Selection2427 carrying putative gametocidal gene (s). Genome 60(12):1076–1085

    Article  CAS  PubMed  Google Scholar 

  • Prasad P, Savadi S, Bhardwaj SC, Gupta PK (2020) The progress of leaf rust research in wheat. Fungal Biol. https://doi.org/10.1016/j.funbio.2020.02.013

    Article  PubMed  Google Scholar 

  • Prasad SV, Sai, Singh SK, Kumar V, Kantwa SL, Dubey VG, Ambati D, Prakasha TL, Mishra AN (2013) Pyramiding of resistance genesSr36andSr2in durum wheat background (HI 8498) through marker-assisted selection for resistance to stem rust race 117-grouppathotypes. In‘International Symposium on Genetics and Breedingof Durum Wheat’.27–30 May 2013. Rome. Abstract, p. 57. (ENEA:Rome)

  • Prins R,GroenewaldJZ, Marais GF, SnapeJW KoebnerRMD (2001) AFLP and STS tagging of Lr19, a gene conferring resistance to leaf rust in wheat. Theor Appl Genet 103:618–624. doi:https://doi.org/10.1007/PL00002918

    Article  CAS  Google Scholar 

  • Qureshi N, Bariana H, Kumran VV, Muruga S, Forrest KL, Hayden MJ, Bansal U (2018) A new leaf rust resistance gene Lr79 mapped in chromosome 3BL from the durum wheat landrace Aus26582. Theor Appl Genet 131(5):1091–1098

    Article  CAS  PubMed  Google Scholar 

  • Randhawa MS, Bains NS, Sohu VS, Chhuneja P, Trethowan RM, Bariana HS, Bansal U (2019) Marker assisted transfer of stripe rust and stem rust resistance genes into four wheat cultivars. Agronomy 9:497

    Article  CAS  Google Scholar 

  • Rani K, Raghu BR, Jha SK, Agarwal P, Mallick N, Niranjana M, Sharma JB, Singh AK, Sharma NK, Rajkumar S, Tomar SMS (2020) A novel leaf rust resistance gene introgressed from Aegilops markgrafii maps on chromosome arm 2AS of wheat. Theor Appl Genet 7:1–0

    Google Scholar 

  • Rosewarne GM, Singh RP, Huerta-Espino J, William HM, BouchetS, Cloutier S,McFaddenH, LagudahES (2006) Leaf tip necrosis, molecular markers and beta1-proteasome subunits associated with the slow rusting resistance genes Lr46/Yr29. Theor Appl Genet 112(3): 500–508. https://doi.org/10.1007/s00122-005-0153-6

  • Singh AK, Sharma JB, Vinod, Singh PK, Singh A, Mallick N (2017a) Genetics and mapping of a new leaf rust resistance gene in Triticum aestivum L.× Triticum timopheeviiZhuk. derivative ‘Selection G12’. J Genet 96(2):291–297

    Article  CAS  PubMed  Google Scholar 

  • Singh M, Mallick N, Chand S, Kumari P, Sharma JB, Sivasamy M, Jayaprakash P, Prabhu KV, Jha SK, Vinod (2017b) Marker-assisted pyramiding of two Thinopyrumderived leaf rust resistance genes Lr19 and Lr24 in bread wheat variety HD2733. J Genet 96(6):951–957. doi:10.1007/s12041-017-0859-7

    Article  CAS  PubMed  Google Scholar 

  • Spielmeyer W, Mago R, Wellings C et al (2013) Lr67 and Lr34rust resistance genes have much in common – they confer broad spectrum resistance to multiple pathogens in wheat. BMC Plant Biol 13:96. https://doi.org/10.1186/1471-2229-13-96

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Spielmeyer W, Sharp PJ, Lagudah ES (2003) Identification and validation of markers linked to broad-spectrum stem rust resistance gene Sr2 in wheat (Triticum aestivum L.). Crop Sci 43:36

    Google Scholar 

  • Suenaga K, Singh RP, Huerta-Espino J, William HM (2003) Microsatellite Markers for genes Lr34/Yr18 and other quantitative trait loci for leaf rust and stripe rust resistance in bread wheat. Phytopathology 93:881–890

    Article  CAS  PubMed  Google Scholar 

  • SuryavanshiP, Singh Y (2020) Assessment of Unnat PBW 343 (Rust Resistant Wheat Variety) in Mohali, Punjab. Indian J Appl Biosci (IJPAB) 8(3):64–69

    Article  Google Scholar 

  • Thomas J, Nilmalgoda S, Hiebert C, McCallum B, Humphreys G, DePauw R (2010) Genetic markers and leaf rust resistance of the wheat gene Lr32. Crop Sci 50(6):2310–7

  • Tomar SMS, Singh SK, Sivasamy M, Vinod (2014) Wheat rusts in India: Resistance breeding and gene deployment - A review. Indian J Genet 74(2):129–156

    Article  CAS  Google Scholar 

  • Vasistha NK, Balasubramaniam A, Mishra VK, Srinivasa J, Chand R, Joshi AK (2017) Molecular introgression of leaf rust resistance gene Lr34 validates enhanced effect on resistance to spot blotch in spring wheat. Euphytica 213:262. doi:https://doi.org/10.1007/s10681-017-2051-9

    Article  CAS  Google Scholar 

  • Vishwakarma G, Das BK, Kumar S, Mishra CN, Saharan MS, Saini A (2017) Radiation induced mutations for developing enhanced resistance to yellow (stripe) rust of wheat. BARC Newsletter Nov-Dec/17

  • Wang LF, Ma JX, Zhou RH, Wang XM, Jia JZ (2002) Molecular tagging of the yellow rust resistance gene Yr10 in common wheat, P.I. 178383 (Triticum aestivum L.). Euphytica 124, 71–73. https://doi.org/10.1023/1015689817857

  • Yadawad A, Gadpale A, Hanchinal RR, Nadaf HL, Desai SA, Biradar S, Naik VR (2017) Pyramiding of leaf rust resistance genes in bread wheat variety DWR 162 through marker assisted backcrossing. Indian J Genet 77(2):251–257

    Article  CAS  Google Scholar 

  • Zheng W, Li S, Liu Z, Zhou Q, Feng Y, Chai S (2020) Molecular marker assisted gene stacking for disease resistance and quality genes in the dwarf mutant of an elite common wheat cultivar Xiaoyan22. BMC Genet 21:45. https://doi.org/10.1186/s12863-020-00854-2

    Article  CAS  PubMed  PubMed Central  Google Scholar 

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Acknowledgements

The authors are highly grateful to Department of Biotechnology, GOI and ICAR-Consortium Research Platform on Molecular Breeding for funding this research.

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  1. Division of Genetics, ICAR-Indian Agricultural Research Institute, New Delhi, 110012, India

    Niharika Mallick, Priyanka Agarwal, Shailendra K. Jha, M. Niranjana &  Vinod

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  1. Niharika Mallick
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  2. Priyanka Agarwal
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  4. M. Niranjana
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Authors NM, PA and V have prepared the review article and authors V, SKJ and MN have revised the article.

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Correspondence to Vinod.

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Mallick, N., Agarwal, P., Jha, S.K. et al. Marker‐assisted breeding for rust management in wheat. Indian Phytopathology 74, 365–370 (2021). https://doi.org/10.1007/s42360-020-00317-9

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  • DOI: https://doi.org/10.1007/s42360-020-00317-9

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